Email updates

Keep up to date with the latest news and content from BMC Systems Biology and BioMed Central.

Open Access Research article

Rational design of 13C-labeling experiments for metabolic flux analysis in mammalian cells

Scott B Crown, Woo Suk Ahn and Maciek R Antoniewicz*

Author Affiliations

Department of Chemical and Biomolecular Engineering, Metabolic Engineering and Systems Biology Laboratory, University of Delaware, Newark, DE, 19716, USA

For all author emails, please log on.

BMC Systems Biology 2012, 6:43  doi:10.1186/1752-0509-6-43

Published: 16 May 2012

Additional files

Additional file 1:

– Stoichiometry, carbon transitions, and assumed fluxes for network model. Title: Stoichiometry, carbon transitions, and assumed fluxes for network model. Description: Necessary information to reproduce simulation results in this manuscript.

Format: PDF Size: 71KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

– EMU basis vectors, coefficients, and sensitivities. Title: EMU basis vectors, coefficients, and sensitivities. Description: Exhaustive listing of EMU basis vectors, coefficients, and sensitivities.

Format: PDF Size: 22KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 3:

– Sensitivities of tracers to the oxPPP and PC fluxes. Title: Sensitivities of tracers to the oxPPP and PC fluxes. Description: Maximum sensitivity for glucose tracers with respect to (A) oxPPP flux and (B) PC flux.

Format: PDF Size: 71KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 4:

– Confidence intervals of oxPPP and PC fluxes for various glucose tracers. Title: Confidence intervals of oxPPP and PC fluxes for various glucose tracers. Description: Representative confidence intervals for glucose tracers for (A) oxPPP flux and (B) PC flux.

Format: PDF Size: 81KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 5:

– Effect of mixtures on oxPPP and PC confidence intervals. Title: Effect of mixtures on oxPPP and PC confidence intervals. Description: Mixture effects of unlabeled glucose tracer for optimal oxPPP and PC tracers (A & C). Comparison of commercially available tracers mixtures versus the custom synthesized counterparts for oxPPP and PC fluxes (B & D).

Format: PDF Size: 149KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 6:

– Resolution of oxPPP and PC fluxes with a single tracer. Title: Resolution of oxPPP and PC fluxes with a single tracer. Description: Comparison of confidence intervals for (A) oxPPP flux and (B) PC flux for optimal tracers ([1-13C]glucose, [2,3,4,5,6-13C]glucose, and [3,4-13C]glucose), and others.

Format: PDF Size: 74KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 7:

– Comparison of [1-13C]glucose and [2,3,4,5,6-13C]glucose for oxPPP resolution. Title: Comparison of [1-13C]glucose and [2,3,4,5,6-13C]glucose for oxPPP resolution. Description: Range of confidence intervals for [1-13C]glucose and [2,3,4,5,6-13C]glucose over various combinations of oxPPP and PC flux values.

Format: PDF Size: 30KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 8:

– Comparison of reaction reversibilities on confidence intervals for oxPPP and PC fluxes. Title: Comparison of reaction reversibilities on confidence intervals for oxPPP and PC fluxes. Description: Simulation of (A) oxPPP and (B) PC confidence intervals for network model without reversible fluxes (blue bars) and with reversible reactions included (red bars). For simulations including reversible reactions, the assumed exchange fluxes and normalized flux values were: transketolase (0.08), transaldolase (0.08), and malate dehydrogenase (1.1).

Format: PDF Size: 91KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data